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IHTSDO / ihtsdo-refset-management-service

This is a tool to create, maintain, import, export, publish and otherwise manage (extensional and intensional) reference sets.
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Problem generate sample data #1

Closed flavioayres closed 5 years ago

flavioayres commented 5 years ago

Hi,

I am trying to execute step 7 of the tutorial (https://confluence.ihtsdotools.org/display/REFSET/Building+and+Deploying+in+Eclipse) and I am getting the following error:

[ERROR] Failed to execute goal org.ihtsdo.otf.refset:refset-admin:1.1.4:sample-data (sample) on project refset-admin: Unexpected exception: Identifier assignment handler did not properly initialize, serious error. -> [Help 1] org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.ihtsdo.otf.refset:refset-admin:1.1.4:sample-data (sample ) on project refset-admin: Unexpected exception: at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:212) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:116) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:80) at org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build(SingleThreadedBuilder.java:51) at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:128) at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:307) at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:193) at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:106) at org.apache.maven.cli.MavenCli.execute(MavenCli.java:863) at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:288) at org.apache.maven.cli.MavenCli.main(MavenCli.java:199) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:289) at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:229) at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:415) at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:356) Caused by: org.apache.maven.plugin.MojoFailureException: Unexpected exception: at org.ihtsdo.otf.refset.mojo.GenerateSampleDataMojo.execute(GenerateSampleDataMojo.java:155) at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:134) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:207) ... 20 more Caused by: java.lang.Exception: Identifier assignment handler did not properly initialize, serious error. at org.ihtsdo.otf.refset.jpa.services.ProjectServiceJpa.<init>(ProjectServiceJpa.java:144) at org.ihtsdo.otf.refset.mojo.GenerateSampleDataMojo.execute(GenerateSampleDataMojo.java:120) ... 22 more

Which configuration or URL should I use to make it work?

RichardAWood commented 5 years ago

Hello,

Apologies for the delay in responding to you - I've been unavailable for the past few days. I'm looking into this issue, and will write again within the next 24-48 hours.

In the meantime, if you'd like to contact me directly, please feel free to do so: rwood@westcoastinformatics.com

RichardAWood commented 5 years ago

Hello again Flavio,

So after investigating, it turns out your issues come from a couple places.

First, your config.properties is set to IhtsdoComponentIdentifierServceHandler, which requires credentials from SNOMED. If you don't have these credentials, you can set your config.properties to this instead (I've left the original lines in and commented out, for reference):

#

Identifier assignment handler - TODO

# identifier.assignment.handler=DEFAULT identifier.assignment.handler.DEFAULT.class=org.ihtsdo.otf.refset.jpa.services.handlers.DummyComponentIdentifierServiceHandler

identifier.assignment.handler.DEFAULT.class=org.ihtsdo.otf.refset.jpa.services.handlers.IhtsdoComponentIdentifierServiceHandler

identifier.assignment.handler.DEFAULT.url=https://cis.ihtsdotools.org/api

identifier.assignment.handler.DEFAULT.userName=EDIT_THIS

identifier.assignment.handler.DEFAULT.password=EDIT_THIS

I also went ahead and ran step 7 of the tutorial myself to make sure, and the version of Snomed referenced needed to be updated as well. I've made the code updates and pushed them to the master branch - please pull the updates and rebuild.

I hope this works for you, and please let me know if you run into any other problems.

-Rick

flavioayres commented 5 years ago

Hi Richard, thanks for the update!

I tried step 7 again and I got the following error:

Caused by: com.fasterxml.jackson.core.JsonParseException: Unrecognized token 'admin': was expecting ('true', 'false' or 'null') at [Source: admin; line: 1, column: 11] at com.fasterxml.jackson.core.JsonParser._constructError(JsonParser.java:1486) at com.fasterxml.jackson.core.base.ParserMinimalBase._reportError(ParserMinimalBase.java:518) at com.fasterxml.jackson.core.json.ReaderBasedJsonParser._reportInvalidToken(ReaderBasedJsonParser.java:2300) at com.fasterxml.jackson.core.json.ReaderBasedJsonParser._handleOddValue(ReaderBasedJsonParser.java:1459) at com.fasterxml.jackson.core.json.ReaderBasedJsonParser.nextToken(ReaderBasedJsonParser.java:683) at com.fasterxml.jackson.databind.ObjectMapper._initForReading(ObjectMapper.java:3600) at com.fasterxml.jackson.databind.ObjectMapper._readMapAndClose(ObjectMapper.java:3545) at com.fasterxml.jackson.databind.ObjectMapper.readTree(ObjectMapper.java:2134) at org.ihtsdo.otf.refset.jpa.services.handlers.ImsSecurityServiceHandler.authenticate(ImsSecurityServiceHandler.java:39) at org.ihtsdo.otf.refset.jpa.services.SecurityServiceJpa.authenticate(SecurityServiceJpa.java:81) at org.ihtsdo.otf.refset.mojo.GenerateSampleDataMojo.execute(GenerateSampleDataMojo.java:130) ... 22 more

In config.properties, I left as it was (prod config):

URL for security service

security.timeout=7200000 security.guest.disabled=false security.handler=IMS security.handler.DEFAULT.class=org.ihtsdo.otf.refset.jpa.services.handlers.DefaultSecurityServiceHandler security.handler.DEFAULT.users.admin=admin security.handler.DEFAULT.users.viewer=guest,guest1,author1,reviewer1,guest2,author2,reviewer2,guest3,author3,reviewer3,admin1,admin2,admin3 security.handler.IMS.class=org.ihtsdo.otf.refset.jpa.services.handlers.ImsSecurityServiceHandler security.handler.IMS.url=https://ims.ihtsdotools.org

Admin user for running mojos

admin.user=admin admin.password=admin

RichardAWood commented 5 years ago

Hi again Flavio,

Would you be interested in setting up a Zoom meeting to share screens and get you up and running? I can see what's causing your current issue, but in case you run into anything else it would be great to be able to help you real-time.

-Rick

flavioayres commented 5 years ago

That would be great!

I'll contact you so we can schedule the meeting.

Thanks!

RichardAWood commented 5 years ago

Issues was resolved during phone call. The "Building and Deploying in Eclipse" instructions on Confluence are being updated to clarify what needed to be done to get things working.